Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0014470 | RHN78377.1 | 100.000 | 48 | 0 | 0 | 1 | 48 | 1 | 48 | 1.30e-28 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0014470 | A0A396JUL9 | 100.000 | 48 | 0 | 0 | 1 | 48 | 1 | 48 | 6.19e-29 | 110 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0014470 | Msa0063500 | 0.801519 | 8.665781e-49 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0014470 | MtrunA17_Chr1g0164821 | 100.000 | 48 | 0 | 0 | 1 | 48 | 1 | 48 | 1.19e-32 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 50 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTAGTGTTCTTTGTTTA+AGG | 0.102484 | 1_1:-22916566 | Msa0014470:three_prime_UTR |
| TTTGCATGCAAGTCTATATT+TGG | 0.149495 | 1_1:-22916742 | Msa0014470:CDS |
| TTGATGTCTTCGACACTTTC+AGG | 0.157889 | 1_1:-22916681 | Msa0014470:exon |
| TTTGCAGCATCAACAGTTTC+TGG | 0.205539 | 1_1:-22916768 | Msa0014470:intron |
| AGGATTATATGTAAAATCTT+TGG | 0.207833 | 1_1:-22916546 | Msa0014470:three_prime_UTR |
| AGACTTTAAAACAGCATCTT+AGG | 0.224038 | 1_1:+22916028 | None:intergenic |
| AATTGTGGTATGCAATATAA+AGG | 0.236352 | 1_1:-22916232 | Msa0014470:three_prime_UTR |
| ACTCTCAACATTACTCTTTC+CGG | 0.250688 | 1_1:+22916420 | None:intergenic |
| TTAGGTTAAAACATCATCTT+AGG | 0.252023 | 1_1:+22916046 | None:intergenic |
| CCCATCCAGGTTGGAATGTT+GGG | 0.289826 | 1_1:+22917213 | None:intergenic |
| GGATTATATGTAAAATCTTT+GGG | 0.309419 | 1_1:-22916545 | Msa0014470:three_prime_UTR |
| ATGTGGCATGAATTTCTTCT+AGG | 0.316936 | 1_1:+22917189 | None:intergenic |
| TAAGGCTATTCATCATTATA+TGG | 0.325082 | 1_1:+22917252 | None:intergenic |
| TAATGATGAATAGCCTTATC+TGG | 0.349011 | 1_1:-22917247 | Msa0014470:CDS |
| ATGTTGAGAGTTGTTGCTTT+TGG | 0.365055 | 1_1:-22916408 | Msa0014470:three_prime_UTR |
| GTCCATGATTAAAGTGTTGA+TGG | 0.365851 | 1_1:-22916502 | Msa0014470:three_prime_UTR |
| ATTGTGGTATGCAATATAAA+GGG | 0.378206 | 1_1:-22916231 | Msa0014470:three_prime_UTR |
| TTCCATCAACACTTTAATCA+TGG | 0.378693 | 1_1:+22916500 | None:intergenic |
| AGGAAAGAAGCTTTGGTTGT+TGG | 0.396242 | 1_1:-22916636 | Msa0014470:three_prime_UTR |
| TGTTGATGGAAAGGTTTAGT+TGG | 0.408545 | 1_1:-22916488 | Msa0014470:three_prime_UTR |
| TCCCATCCAGGTTGGAATGT+TGG | 0.427040 | 1_1:+22917212 | None:intergenic |
| AGACATCAACGCGTCGAAAC+CGG | 0.430436 | 1_1:+22916695 | None:intergenic |
| CAAATGCATAAGTTGGCAAA+TGG | 0.438197 | 1_1:-22917162 | Msa0014470:CDS |
| AAAACGATGGTTTAAAATTG+TGG | 0.467219 | 1_1:-22916247 | Msa0014470:three_prime_UTR |
| AAAGAAGCTTTGGTTGTTGG+AGG | 0.477083 | 1_1:-22916633 | Msa0014470:three_prime_UTR |
| TAAAATCTTTGGGGAGAATG+TGG | 0.478812 | 1_1:-22916535 | Msa0014470:three_prime_UTR |
| AATTTGTGCAATGGCTTATG+TGG | 0.510079 | 1_1:-22916334 | Msa0014470:three_prime_UTR |
| CTTCTAGGTCCCATCCAGGT+TGG | 0.514155 | 1_1:+22917204 | None:intergenic |
| CCCAACATTCCAACCTGGAT+GGG | 0.516887 | 1_1:-22917213 | Msa0014470:CDS |
| ACCCAACATTCCAACCTGGA+TGG | 0.518422 | 1_1:-22917214 | Msa0014470:CDS |
| TGATTAAAGTGTTGATGGAA+AGG | 0.521545 | 1_1:-22916497 | Msa0014470:three_prime_UTR |
| AAAATCTTTGGGGAGAATGT+GGG | 0.532039 | 1_1:-22916534 | Msa0014470:three_prime_UTR |
| GCGTCGAAACCGGTATAATA+CGG | 0.533596 | 1_1:+22916705 | None:intergenic |
| ATTGTGTTACCGTATTATAC+CGG | 0.533901 | 1_1:-22916714 | Msa0014470:CDS |
| AAGAAGCTTTGGTTGTTGGA+GGG | 0.534987 | 1_1:-22916632 | Msa0014470:three_prime_UTR |
| TTTGCTTCATGTTCTCAAAG+AGG | 0.537931 | 1_1:-22916367 | Msa0014470:three_prime_UTR |
| ATTTCTTCTAGGTCCCATCC+AGG | 0.541890 | 1_1:+22917200 | None:intergenic |
| AACTAGTGAAGTACAAAGGT+TGG | 0.543343 | 1_1:-22916608 | Msa0014470:three_prime_UTR |
| TGTGTGTAGGAAAGAAGCTT+TGG | 0.547839 | 1_1:-22916643 | Msa0014470:three_prime_UTR |
| TTTGATTGCAAAGTCACCAC+CGG | 0.550429 | 1_1:-22916439 | Msa0014470:three_prime_UTR |
| TTGTCACATACATAATGGTA+AGG | 0.559614 | 1_1:+22917113 | None:intergenic |
| AAATCTTTGGGGAGAATGTG+GGG | 0.568787 | 1_1:-22916533 | Msa0014470:three_prime_UTR |
| TTGGCAAATGGAAGAAACAA+TGG | 0.577416 | 1_1:-22917150 | Msa0014470:CDS |
| ATGTAGTCAAATTTGTGCAA+TGG | 0.580987 | 1_1:-22916343 | Msa0014470:three_prime_UTR |
| ACGAAGGTTACTTTGAGAAG+CGG | 0.602692 | 1_1:+22916148 | None:intergenic |
| CTCAACATTACTCTTTCCGG+TGG | 0.610843 | 1_1:+22916423 | None:intergenic |
| GATTATATGTAAAATCTTTG+GGG | 0.628144 | 1_1:-22916544 | Msa0014470:three_prime_UTR |
| AGTATGTAATATCAAAACGA+TGG | 0.650160 | 1_1:-22916260 | Msa0014470:three_prime_UTR |
| AATGTGCAACATGTGTGTGT+AGG | 0.666637 | 1_1:-22916656 | Msa0014470:three_prime_UTR |
| GGGAAACTAGTGAAGTACAA+AGG | 0.675405 | 1_1:-22916612 | Msa0014470:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGAAAAAAAAATAGATTTA+AGG | - | chr1_1:22917123-22917142 | Msa0014470:intron | 10.0% |
| !!! | TACTTTTTTATTTATGCAAT+TGG | + | chr1_1:22916955-22916974 | None:intergenic | 15.0% |
| !! | ATGAATATTATCTCAAGAAA+AGG | - | chr1_1:22916232-22916251 | Msa0014470:three_prime_UTR | 20.0% |
| !!! | AAAAGATTTTTTTTACCTTC+TGG | - | chr1_1:22916277-22916296 | Msa0014470:three_prime_UTR | 20.0% |
| !! | TATAATCTTAATCTTTGCAA+AGG | - | chr1_1:22916318-22916337 | Msa0014470:three_prime_UTR | 20.0% |
| !! | ATAATCTTAATCTTTGCAAA+GGG | - | chr1_1:22916319-22916338 | Msa0014470:three_prime_UTR | 20.0% |
| !! | AGGATTATATGTAAAATCTT+TGG | - | chr1_1:22916685-22916704 | Msa0014470:exon | 20.0% |
| !! | GGATTATATGTAAAATCTTT+GGG | - | chr1_1:22916686-22916705 | Msa0014470:exon | 20.0% |
| !! | GATTATATGTAAAATCTTTG+GGG | - | chr1_1:22916687-22916706 | Msa0014470:exon | 20.0% |
| ! | TAAGGCTATTCATCATTATA+TGG | + | chr1_1:22915982-22916001 | None:intergenic | 25.0% |
| ! | ACTTATGCATTTGAAAAATG+TGG | + | chr1_1:22916062-22916081 | None:intergenic | 25.0% |
| !!! | CATTTTTCAAATGCATAAGT+TGG | - | chr1_1:22916062-22916081 | Msa0014470:three_prime_UTR | 25.0% |
| !!! | AAGTTTTGTCACATACATAA+TGG | + | chr1_1:22916126-22916145 | None:intergenic | 25.0% |
| ! | TGGAAAGATGATAATTTGAA+GGG | + | chr1_1:22916150-22916169 | None:intergenic | 25.0% |
| ! | ATGGAAAGATGATAATTTGA+AGG | + | chr1_1:22916151-22916170 | None:intergenic | 25.0% |
| ! | GCAAAGATTAAGATTATAAG+CGG | + | chr1_1:22916316-22916335 | None:intergenic | 25.0% |
| ! | ATAATCAGCTTCATTATCAA+AGG | + | chr1_1:22916422-22916441 | None:intergenic | 25.0% |
| !! | TGATAATGAAGCTGATTATA+AGG | - | chr1_1:22916423-22916442 | Msa0014470:three_prime_UTR | 25.0% |
| !! | TTGTTAGTGTTCTTTGTTTA+AGG | - | chr1_1:22916665-22916684 | Msa0014470:three_prime_UTR | 25.0% |
| ! | AGTATGTAATATCAAAACGA+TGG | - | chr1_1:22916971-22916990 | Msa0014470:intron | 25.0% |
| !! | AAAACGATGGTTTAAAATTG+TGG | - | chr1_1:22916984-22917003 | Msa0014470:intron | 25.0% |
| ! | AATTGTGGTATGCAATATAA+AGG | - | chr1_1:22916999-22917018 | Msa0014470:intron | 25.0% |
| ! | ATTGTGGTATGCAATATAAA+GGG | - | chr1_1:22917000-22917019 | Msa0014470:intron | 25.0% |
| ! | TTAGGTTAAAACATCATCTT+AGG | + | chr1_1:22917188-22917207 | None:intergenic | 25.0% |
| !! | TAATGATGAATAGCCTTATC+TGG | - | chr1_1:22915984-22916003 | Msa0014470:three_prime_UTR | 30.0% |
| TTGTCACATACATAATGGTA+AGG | + | chr1_1:22916121-22916140 | None:intergenic | 30.0% | |
| AAGAAATTGTTGTGAAGAGA+AGG | + | chr1_1:22916186-22916205 | None:intergenic | 30.0% | |
| ATTATAAGCGGAAGAGATAT+AGG | + | chr1_1:22916304-22916323 | None:intergenic | 30.0% | |
| ! | ATTTTCCCACTTTCTTGTAT+TGG | - | chr1_1:22916358-22916377 | Msa0014470:three_prime_UTR | 30.0% |
| TTTGCATGCAAGTCTATATT+TGG | - | chr1_1:22916489-22916508 | Msa0014470:three_prime_UTR | 30.0% | |
| ATTGTGTTACCGTATTATAC+CGG | - | chr1_1:22916517-22916536 | Msa0014470:three_prime_UTR | 30.0% | |
| TTCCATCAACACTTTAATCA+TGG | + | chr1_1:22916734-22916753 | None:intergenic | 30.0% | |
| !! | TGATTAAAGTGTTGATGGAA+AGG | - | chr1_1:22916734-22916753 | Msa0014470:CDS | 30.0% |
| ATGTAGTCAAATTTGTGCAA+TGG | - | chr1_1:22916888-22916907 | Msa0014470:intron | 30.0% | |
| ! | ATGCAATATAAAGGGTTTTG+AGG | - | chr1_1:22917008-22917027 | Msa0014470:intron | 30.0% |
| !! | AACTACAATTTTGATCGCAT+CGG | - | chr1_1:22917050-22917069 | Msa0014470:intron | 30.0% |
| !! | AGACTTTAAAACAGCATCTT+AGG | + | chr1_1:22917206-22917225 | None:intergenic | 30.0% |
| !!! | GTTGGAATGTTGGGTTTTTT+GGG | + | chr1_1:22916012-22916031 | None:intergenic | 35.0% |
| ATGTGGCATGAATTTCTTCT+AGG | + | chr1_1:22916045-22916064 | None:intergenic | 35.0% | |
| ! | CAAATGCATAAGTTGGCAAA+TGG | - | chr1_1:22916069-22916088 | Msa0014470:three_prime_UTR | 35.0% |
| TTGGCAAATGGAAGAAACAA+TGG | - | chr1_1:22916081-22916100 | Msa0014470:three_prime_UTR | 35.0% | |
| GAGAAGGACTAAGATATCAA+TGG | + | chr1_1:22916170-22916189 | None:intergenic | 35.0% | |
| AGAACCAATAGAAGAATTGC+TGG | + | chr1_1:22916385-22916404 | None:intergenic | 35.0% | |
| AACTAGTGAAGTACAAAGGT+TGG | - | chr1_1:22916623-22916642 | Msa0014470:three_prime_UTR | 35.0% | |
| ! | TAAAATCTTTGGGGAGAATG+TGG | - | chr1_1:22916696-22916715 | Msa0014470:exon | 35.0% |
| ! | AAAATCTTTGGGGAGAATGT+GGG | - | chr1_1:22916697-22916716 | Msa0014470:exon | 35.0% |
| !! | GTCCATGATTAAAGTGTTGA+TGG | - | chr1_1:22916729-22916748 | Msa0014470:CDS | 35.0% |
| ! | TGTTGATGGAAAGGTTTAGT+TGG | - | chr1_1:22916743-22916762 | Msa0014470:CDS | 35.0% |
| ACTCTCAACATTACTCTTTC+CGG | + | chr1_1:22916814-22916833 | None:intergenic | 35.0% | |
| !!! | ATGTTGAGAGTTGTTGCTTT+TGG | - | chr1_1:22916823-22916842 | Msa0014470:intron | 35.0% |
| TTTGCTTCATGTTCTCAAAG+AGG | - | chr1_1:22916864-22916883 | Msa0014470:intron | 35.0% | |
| AATTTGTGCAATGGCTTATG+TGG | - | chr1_1:22916897-22916916 | Msa0014470:intron | 35.0% | |
| TGTGGCAGAAAAATTGAGAT+TGG | - | chr1_1:22916915-22916934 | Msa0014470:intron | 35.0% | |
| !! | GTCGTTTTAAATTGTGACGA+AGG | + | chr1_1:22917102-22917121 | None:intergenic | 35.0% |
| !!! | GGTTGGAATGTTGGGTTTTT+TGG | + | chr1_1:22916013-22916032 | None:intergenic | 40.0% |
| AAAAACCCAACATTCCAACC+TGG | - | chr1_1:22916013-22916032 | Msa0014470:three_prime_UTR | 40.0% | |
| CTGGTCCAATACAAGAAAGT+GGG | + | chr1_1:22916366-22916385 | None:intergenic | 40.0% | |
| TGGACCAGCAATTCTTCTAT+TGG | - | chr1_1:22916378-22916397 | Msa0014470:three_prime_UTR | 40.0% | |
| TTTGCAGCATCAACAGTTTC+TGG | - | chr1_1:22916463-22916482 | Msa0014470:three_prime_UTR | 40.0% | |
| TTGATGTCTTCGACACTTTC+AGG | - | chr1_1:22916550-22916569 | Msa0014470:three_prime_UTR | 40.0% | |
| AATGTGCAACATGTGTGTGT+AGG | - | chr1_1:22916575-22916594 | Msa0014470:three_prime_UTR | 40.0% | |
| TGTGTGTAGGAAAGAAGCTT+TGG | - | chr1_1:22916588-22916607 | Msa0014470:three_prime_UTR | 40.0% | |
| ! | AGGAAAGAAGCTTTGGTTGT+TGG | - | chr1_1:22916595-22916614 | Msa0014470:three_prime_UTR | 40.0% |
| ! | AAAGAAGCTTTGGTTGTTGG+AGG | - | chr1_1:22916598-22916617 | Msa0014470:three_prime_UTR | 40.0% |
| ! | AAGAAGCTTTGGTTGTTGGA+GGG | - | chr1_1:22916599-22916618 | Msa0014470:three_prime_UTR | 40.0% |
| GGGAAACTAGTGAAGTACAA+AGG | - | chr1_1:22916619-22916638 | Msa0014470:three_prime_UTR | 40.0% | |
| ! | AAATCTTTGGGGAGAATGTG+GGG | - | chr1_1:22916698-22916717 | Msa0014470:exon | 40.0% |
| TTTGATTGCAAAGTCACCAC+CGG | - | chr1_1:22916792-22916811 | Msa0014470:intron | 40.0% | |
| !!! | TTGAGAGTTGTTGCTTTTGG+AGG | - | chr1_1:22916826-22916845 | Msa0014470:intron | 40.0% |
| ! | ACGAAGGTTACTTTGAGAAG+CGG | + | chr1_1:22917086-22917105 | None:intergenic | 40.0% |
| !!! | GGTTTTTTGGGAGCCAGATA+AGG | + | chr1_1:22916000-22916019 | None:intergenic | 45.0% |
| ATTTCTTCTAGGTCCCATCC+AGG | + | chr1_1:22916034-22916053 | None:intergenic | 45.0% | |
| GGAAGAGATATAGGACCAGA+AGG | + | chr1_1:22916295-22916314 | None:intergenic | 45.0% | |
| GCTGGTCCAATACAAGAAAG+TGG | + | chr1_1:22916367-22916386 | None:intergenic | 45.0% | |
| GCGTCGAAACCGGTATAATA+CGG | + | chr1_1:22916529-22916548 | None:intergenic | 45.0% | |
| CTCAACATTACTCTTTCCGG+TGG | + | chr1_1:22916811-22916830 | None:intergenic | 45.0% | |
| ACCCAACATTCCAACCTGGA+TGG | - | chr1_1:22916017-22916036 | Msa0014470:three_prime_UTR | 50.0% | |
| ! | CCCATCCAGGTTGGAATGTT+GGG | + | chr1_1:22916021-22916040 | None:intergenic | 50.0% |
| CCCAACATTCCAACCTGGAT+GGG | - | chr1_1:22916018-22916037 | Msa0014470:three_prime_UTR | 50.0% | |
| ! | TCCCATCCAGGTTGGAATGT+TGG | + | chr1_1:22916022-22916041 | None:intergenic | 50.0% |
| AGACATCAACGCGTCGAAAC+CGG | + | chr1_1:22916539-22916558 | None:intergenic | 50.0% | |
| CTTCTAGGTCCCATCCAGGT+TGG | + | chr1_1:22916030-22916049 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 22915961 | 22917292 | 22915961 | ID=Msa0014470;Name=Msa0014470 |
| chr1_1 | mRNA | 22915961 | 22917292 | 22915961 | ID=Msa0014470-mRNA-1;Parent=Msa0014470;Name=Msa0014470-mRNA-1;_AED=0.13;_eAED=0.13;_QI=25|1|1|1|0|0|2|739|75 |
| chr1_1 | exon | 22915961 | 22916783 | 22915961 | ID=Msa0014470-mRNA-1:exon:8057;Parent=Msa0014470-mRNA-1 |
| chr1_1 | exon | 22917124 | 22917292 | 22917124 | ID=Msa0014470-mRNA-1:exon:8056;Parent=Msa0014470-mRNA-1 |
| chr1_1 | five_prime_UTR | 22917268 | 22917292 | 22917268 | ID=Msa0014470-mRNA-1:five_prime_utr;Parent=Msa0014470-mRNA-1 |
| chr1_1 | CDS | 22917124 | 22917267 | 22917124 | ID=Msa0014470-mRNA-1:cds;Parent=Msa0014470-mRNA-1 |
| chr1_1 | CDS | 22916700 | 22916783 | 22916700 | ID=Msa0014470-mRNA-1:cds;Parent=Msa0014470-mRNA-1 |
| chr1_1 | three_prime_UTR | 22915961 | 22916699 | 22915961 | ID=Msa0014470-mRNA-1:three_prime_utr;Parent=Msa0014470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
